diff --git a/topics/ecology/tutorials/Manage_AB1_Sanger/tutorial.md b/topics/ecology/tutorials/Manage_AB1_Sanger/tutorial.md index 608112a7bcbbda..1fc0bf8c6dfe10 100644 --- a/topics/ecology/tutorials/Manage_AB1_Sanger/tutorial.md +++ b/topics/ecology/tutorials/Manage_AB1_Sanger/tutorial.md @@ -174,7 +174,7 @@ This following hands-on is to be applied only on the sequence of the antisense ( > > How many files is there in the ZIP archive ? > > > > > ### {% icon solution %} Solution -> > > 12 (if you have a different number of files something likely went srong) +> > > 12 (if you have a different number of files something likely went wrong) > > > > > {: .solution} > > @@ -193,7 +193,7 @@ As for primers, sense and antisense sequences will be subjected to slightly diff > Filter > > 1. {% tool [Extract element identifiers](toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2) %} with the following parameters: -> - {% icon param-collection %} *"Dataset collection*: `output collection` (output of **Unzip** {% icon tool %}) +> - {% icon param-collection %} *"Dataset collection"*: `output collection` (output of **Unzip** {% icon tool %}) > > 2. {% tool [Regex Find And Replace](toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.3) %} with the following parameters: > - {% icon param-file %} *"Select lines from"*: `output` (output of **Extract element identifiers** {% icon tool %}) @@ -332,7 +332,7 @@ See in the introduction for explanations on the Reverse-Complement. > > > {: .comment} > -> 1. {% tool [FASTQ to FASTA](toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.5) %} with the following parameters: +> 1. {% tool [FASTQ to FASTA](toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/cshl_fastq_to_fasta/1.0.2+galaxy2) %} with the following parameters: > - {% icon param-collection %} *"FASTQ file to convert"*: `output collection` (output of **FASTQ Groomer** {% icon tool %}) > - *"Discard sequences with unknown (N) bases"*: `no` > - *"Rename sequence names in output file (reduces file size)"*: `no` @@ -350,7 +350,7 @@ See in the introduction for explanations on the Reverse-Complement. > Align and consensus > > 1. {% tool [Align sequences](toolshed.g2.bx.psu.edu/repos/iuc/qiime_align_seqs/qiime_align_seqs/1.9.1.0) %} with the following parameters: -> - {% icon param-collection %} *"Input fasta file"*: `output collection` (output of **Tabular-to-FASTA** {% icon tool %}) +> - {% icon param-collection %} *"Input fasta file"*: `output collection` (output of **FASTQ-to-FASTA** {% icon tool %}) > - *"Method for aligning sequences"*: `clustalw` > - *"Minimum percent sequence identity to closest blast hit to include sequence in alignment"*: `0.1` >